-
1
-
-
0036306663
-
Homology, pathway distance and chromosomal localization of the small molecule metabolism enzymes in Escherichia coli
-
Rison SC, Teichmann SA, Thornton JM: Homology, pathway distance and chromosomal localization of the small molecule metabolism enzymes in Escherichia coli. J Mol Biol 2002, 318(3):911-932.
-
(2002)
J Mol Biol
, vol.318
, Issue.3
, pp. 911-932
-
-
Rison, S.C.1
Teichmann, S.A.2
Thornton, J.M.3
-
2
-
-
19544389868
-
Protein network inference from multiple genomic data: A supervised approach
-
Yamanishi Y, Vert JP, Kanehisa M: Protein network inference from multiple genomic data: a supervised approach. Bioinformatics 2004, 20(Suppl 1):1363-1370.
-
(2004)
Bioinformatics
, vol.20
, Issue.SUPPL. 1
, pp. 1363-1370
-
-
Yamanishi, Y.1
Vert, J.P.2
Kanehisa, M.3
-
4
-
-
0029852580
-
Use of a cDNA microarray to analyse gene expression patterns in human cancer
-
DeRisi J, Penland L, Brown PO, Bittner ML, Meltzer PS, Ray M, Chen Y, Su YA, Trent JM: Use of a cDNA microarray to analyse gene expression patterns in human cancer. Nat Genet 1996, 14(4):457-460.
-
(1996)
Nat Genet
, vol.14
, Issue.4
, pp. 457-460
-
-
DeRisi, J.1
Penland, L.2
Brown, P.O.3
Bittner, M.L.4
Meltzer, P.S.5
Ray, M.6
Chen, Y.7
Su, Y.A.8
Trent, J.M.9
-
5
-
-
0036699526
-
Revealing modular organization in the yeast transcriptional network
-
Ihmels J, Friedlander G, Bergmann S, Sarig O, Ziv Y, Barkai N: Revealing modular organization in the yeast transcriptional network. Nat Genet 2002, 31(4):370-377.
-
(2002)
Nat Genet
, vol.31
, Issue.4
, pp. 370-377
-
-
Ihmels, J.1
Friedlander, G.2
Bergmann, S.3
Sarig, O.4
Ziv, Y.5
Barkai, N.6
-
6
-
-
0035162782
-
RegulonDB (version 3.2): Transcriptional regulation and operon oganization in Escherichia coli K-12
-
Salgado H, Santos-Zavaleta A, Gama-Castro S, Millan-Zarate D, Diaz-Peredo E, Sanchez-Solano F, Perez-Rueda E, Bonavides-Martinez C, Collado-Vides J: RegulonDB (version 3.2): transcriptional regulation and operon oganization in Escherichia coli K-12. Nucleic Acids Res 2001, 29(1):72-74.
-
(2001)
Nucleic Acids Res
, vol.29
, Issue.1
, pp. 72-74
-
-
Salgado, H.1
Santos-Zavaleta, A.2
Gama-Castro, S.3
Millan-Zarate, D.4
Diaz-Peredo, E.5
Sanchez-Solano, F.6
Perez-Rueda, E.7
Bonavides-Martinez, C.8
Collado-Vides, J.9
-
7
-
-
0037050026
-
Functional organization of the yeast proteome by systematic analysis of protein complexes
-
Gavin AC, Bosche M, Krause R, Grandi P, Marzioch M, Bauer A, Schultz J, Rick JM, Michon AM, Cruciat CM, Remor M, Hofert C, Schelder M, Brajenovic M, Ruffner H, Merino A, Klein K, Hudak M, Dickson D, Rudi T, Gnau V, Bauch A, Bastuck S, Huhse B, Leutwein C, Heurtier MA, Copley RR, Edelmann A, Querfurth E, Rybin V, Drewes G, Raida M, Bouwmeester T, Bork P, Seraphin B, Kuster B, Neubauer G, Superti-Furga G: Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature 2002, 415(6868):141-147.
-
(2002)
Nature
, vol.415
, Issue.6868
, pp. 141-147
-
-
Gavin, A.C.1
Bosche, M.2
Krause, R.3
Grandi, P.4
Marzioch, M.5
Bauer, A.6
Schultz, J.7
Rick, J.M.8
Michon, A.M.9
Cruciat, C.M.10
Remor, M.11
Hofert, C.12
Schelder, M.13
Brajenovic, M.14
Ruffner, H.15
Merino, A.16
Klein, K.17
Hudak, M.18
Dickson, D.19
Rudi, T.20
Gnau, V.21
Bauch, A.22
Bastuck, S.23
Huhse, B.24
Leutwein, C.25
Heurtier, M.A.26
Copley, R.R.27
Edelmann, A.28
Querfurth, E.29
Rybin, V.30
Drewes, G.31
Raida, M.32
Bouwmeester, T.33
Bork, P.34
Seraphin, B.35
Kuster, B.36
Neubauer, G.37
Superti-Furga, G.38
more..
-
8
-
-
0036084127
-
The EcoCyc Database
-
Karp PD, Riley M, Saier M, Paulsen IT, Collado-Vides J, Paley SM, Pellegrini-Toole A, Bonavides C, Gama-Castro S: The EcoCyc Database. Nucleic Acids Res 2002, 30(1):56-58.
-
(2002)
Nucleic Acids Res
, vol.30
, Issue.1
, pp. 56-58
-
-
Karp, P.D.1
Riley, M.2
Saier, M.3
Paulsen, I.T.4
Collado-Vides, J.5
Paley, S.M.6
Pellegrini-Toole, A.7
Bonavides, C.8
Gama-Castro, S.9
-
9
-
-
0346801873
-
The Gene Ontology (GO) database and informatics resource
-
Harris MA, Clark J, Ireland & Lomax J, Ashburner M, Foulger R, Eilbeck K, Lewis S, Marshall B, Mungall C, Richter J, Rubin GM, Blake JA, Bult C, Dolan M, Drabkin H, Eppig JT, Hill DP, Ni L, Ringwald M, Balakrishnan R, Cherry JM, Christie KR, Costanzo MC, Dwight SS, Engel S, Fisk DG, Hirschman JE, Hong EL, Nash RS, Sethuraman A, Theesfeld CL, Botstein D, Dolinski K, Feierbach B, Berardini T, Mundodi S, Rhee SY, Apweiler R, Barrell D, Camon E, Dimmer E, Lee V, Chisholm R, Gaudet P, Kibbe W, Kishore R, Schwarz EM, Sternberg P, Gwinn M, Hannick L, Wortman J, Berriman M, Wood V, de sur la Cruz N, Tonellato P, Jaiswal P, Seigfried T, White R: The Gene Ontology (GO) database and informatics resource. Nucleic Acids Res 2004:D258-261.
-
(2004)
Nucleic Acids Res
-
-
Harris, M.A.1
Clark, J.2
Ireland, A.3
Lomax, J.4
Ashburner, M.5
Foulger, R.6
Eilbeck, K.7
Lewis, S.8
Marshall, B.9
Mungall, C.10
Richter, J.11
Rubin, G.M.12
Blake, J.A.13
Bult, C.14
Dolan, M.15
Drabkin, H.16
Eppig, J.T.17
Hill, D.P.18
Ni, L.19
Ringwald, M.20
Balakrishnan, R.21
Cherry, J.M.22
Christie, K.R.23
Costanzo, M.C.24
Dwight, S.S.25
Engel, S.26
Fisk, D.G.27
Hirschman, J.E.28
Hong, E.L.29
Nash, R.S.30
Sethuraman, A.31
Theesfeld, C.L.32
Botstein, D.33
Dolinski, K.34
Feierbach, B.35
Berardini, T.36
Mundodi, S.37
Rhee, S.Y.38
Apweiler, R.39
Barrell, D.40
Camon, E.41
Dimmer, E.42
Lee, V.43
Chisholm, R.44
Gaudet, P.45
Kibbe, W.46
Kishore, R.47
Schwarz, E.M.48
Sternberg, P.49
Gwinn, M.50
Hannick, L.51
Wortman, J.52
Berriman, M.53
Wood, V.54
de sur la Cruz, N.55
Tonellato, P.56
Jaiswal, P.57
Seigfried, T.58
White, R.59
more..
-
10
-
-
0347364646
-
Genome evolution reveals biochemical networks and functional modules
-
von Mering C, Zdobnov EM, Tsoka S, Ciccarelli FD, Pereira-Leal JB, Ouzounis CA, Bork P: Genome evolution reveals biochemical networks and functional modules. Proc Natl Acad Sci USA 2003, 100(26):15428-15433.
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, Issue.26
, pp. 15428-15433
-
-
von Mering, C.1
Zdobnov, E.M.2
Tsoka, S.3
Ciccarelli, F.D.4
Pereira-Leal, J.B.5
Ouzounis, C.A.6
Bork, P.7
-
11
-
-
0037199968
-
Hierarchical organization of modularity in metabolic networks
-
Ravasz E, Somera AL, Mongru DA, Oltvai ZN, Barabasi AL: Hierarchical organization of modularity in metabolic networks. Science 2002, 297(5586):1551-1555.
-
(2002)
Science
, vol.297
, Issue.5586
, pp. 1551-1555
-
-
Ravasz, E.1
Somera, A.L.2
Mongru, D.A.3
Oltvai, Z.N.4
Barabasi, A.L.5
-
12
-
-
0037174670
-
Network motifs: Simple building blocks of complex networks
-
Milo R, Shen-Orr S, Itzkovitz S, Kashtan N, Chklovskii D, Alon U: Network motifs: simple building blocks of complex networks. Science 2002, 298(5594):824-827.
-
(2002)
Science
, vol.298
, Issue.5594
, pp. 824-827
-
-
Milo, R.1
Shen-Orr, S.2
Itzkovitz, S.3
Kashtan, N.4
Chklovskii, D.5
Alon, U.6
-
13
-
-
1542286745
-
Quantifying modularity in the evolution of biomolecular systems
-
Snel B, Huynen MA: Quantifying modularity in the evolution of biomolecular systems. Genome Res 2004, 14(3):391-397.
-
(2004)
Genome Res
, vol.14
, Issue.3
, pp. 391-397
-
-
Snel, B.1
Huynen, M.A.2
-
14
-
-
18244365622
-
Extraction of phylogenetic network modules from prokaryote metabolic pathways
-
Yamada Y, Goto S, Kanehisa M: Extraction of phylogenetic network modules from prokaryote metabolic pathways. Genome informatics 2004, 15(1):249-258.
-
(2004)
Genome Informatics
, vol.15
, Issue.1
, pp. 249-258
-
-
Yamada, Y.1
Goto, S.2
Kanehisa, M.3
-
15
-
-
0033551248
-
Assigning protein functions by comparative genome analysis: Protein phylogenetic profiles
-
Pellegrini M, Marcotte EM, Thompson MJ, Eisenberg D, Yeates TO: Assigning protein functions by comparative genome analysis: protein phylogenetic profiles. Proc Natl Acad Sci USA 1999, 96(8):4285-4288.
-
(1999)
Proc Natl Acad Sci USA
, vol.96
, Issue.8
, pp. 4285-4288
-
-
Pellegrini, M.1
Marcotte, E.M.2
Thompson, M.J.3
Eisenberg, D.4
Yeates, T.O.5
-
16
-
-
0032829506
-
On the origin of metabolic pathways
-
Lazcano A, Miller SL: On the origin of metabolic pathways. J Mol Evol 1999, 49(4):424-431.
-
(1999)
J Mol Evol
, vol.49
, Issue.4
, pp. 424-431
-
-
Lazcano, A.1
Miller, S.L.2
-
17
-
-
0001260894
-
On the evolution of biochemical synthesis
-
Horowitz HN: On the evolution of biochemical synthesis. Proc Natl Acad Sci USA 1945, 31:153-157.
-
(1945)
Proc Natl Acad Sci USA
, vol.31
, pp. 153-157
-
-
Horowitz, H.N.1
-
18
-
-
0017272554
-
Enzyme recruitment in evolution of new function
-
Jensen RA: Enzyme recruitment in evolution of new function. Annu Rev Microbiol 1976, 30:409-425.
-
(1976)
Annu Rev Microbiol
, vol.30
, pp. 409-425
-
-
Jensen, R.A.1
-
19
-
-
0036600740
-
Pathway evolution, structurally speaking
-
Rison SC, Thornton JM: Pathway evolution, structurally speaking. Cur Opin Struct Biol 2002, 12(3):374-382.
-
(2002)
Cur Opin Struct Biol
, vol.12
, Issue.3
, pp. 374-382
-
-
Rison, S.C.1
Thornton, J.M.2
-
20
-
-
9444239213
-
A probabilistic functional network of yeast genes
-
Lee I, Date SV, Adai AT, Marcotte EM: A probabilistic functional network of yeast genes. Science 2004, 306(5701):1555-1558.
-
(2004)
Science
, vol.306
, Issue.5701
, pp. 1555-1558
-
-
Lee, I.1
Date, S.V.2
Adai, A.T.3
Marcotte, E.M.4
-
21
-
-
0141843591
-
Development of a chemical structure comparison method for integrated analysis of chemical and genomic information in the metabolic pathways
-
Hattori M, Okuno Y, Goto S, Kanehisa M: Development of a chemical structure comparison method for integrated analysis of chemical and genomic information in the metabolic pathways. J Am Chem Soc 2003, 125(39):11853-11865.
-
(2003)
J Am Chem Soc
, vol.125
, Issue.39
, pp. 11853-11865
-
-
Hattori, M.1
Okuno, Y.2
Goto, S.3
Kanehisa, M.4
-
22
-
-
13444293344
-
Database resources of the National Center for Biotechnology Information
-
Wheeler DL, Barrett T, Benson DA, Bryant SH, Canese K, Church DM, DiCuccio M, Edgar R, Federhen S, Helmberg W, Kenton DL, Khovayko O, Lipman DJ, Madden TL, Maglott DR, Ostell J, Pontius JU, Pruitt KD, Schuler GD, Schriml LM, Sequeira E, Sherry ST, Sirotkin K, Starchenko G, Suzek TO, Tatusov R, Tatusova TA, Wagner L, Yaschenko E: Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 2005:D39-45.
-
(2005)
Nucleic Acids Res
-
-
Wheeler, D.L.1
Barrett, T.2
Benson, D.A.3
Bryant, S.H.4
Canese, K.5
Church, D.M.6
DiCuccio, M.7
Edgar, R.8
Federhen, S.9
Helmberg, W.10
Kenton, D.L.11
Khovayko, O.12
Lipman, D.J.13
Madden, T.L.14
Maglott, D.R.15
Ostell, J.16
Pontius, J.U.17
Pruitt, K.D.18
Schuler, G.D.19
Schriml, L.M.20
Sequeira, E.21
Sherry, S.T.22
Sirotkin, K.23
Starchenko, G.24
Suzek, T.O.25
Tatusov, R.26
Tatusova, T.A.27
Wagner, L.28
Yaschenko, E.29
more..
-
23
-
-
84870422128
-
Kyoto Encyclopedia of Genes and Genomes
-
Kyoto Encyclopedia of Genes and Genomes [http://www.genome.jp/kegg]
-
-
-
-
24
-
-
0035085816
-
Genome alignment, evolution of prokaryotic genome organization, and prediction of gene function using genomic context
-
Wolf YI, Rogozin IB, Kondrashov AS, Koonin EV: Genome alignment, evolution of prokaryotic genome organization, and prediction of gene function using genomic context. Genome Res 2001, 11(3):356-372.
-
(2001)
Genome Res
, vol.11
, Issue.3
, pp. 356-372
-
-
Wolf, Y.I.1
Rogozin, I.B.2
Kondrashov, A.S.3
Koonin, E.V.4
|